I'm the author of i.Scribe and I can tell you why that is happening. I was using custom messages to signal the mouse entering and exiting windows. The problem was that I sent them to all windows, not just windows in my app. So of course some apps didn't like that because they are using those messages for their own purposes.
Anyway I fixed that in a previous release (dig through the change log on my site if you want to find the extact one) and the latest test build should work fine.
If not then you could let me know and I'll have a look at the bug.
Cheers
